Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.

作者：Nynke L. van Berkum*1, Erez Lieberman-Aiden*2,3,4,5, Louise Williams*2, Maxim Imakaev6, Andreas Gnirke2, Leonid A. Mirny3,6, Job Dekker1, Eric S. Lander2,7,8 1Program in Gene Function and Expression, Department of Biochemistry and Molecular Pharmacology,University of Massachusetts Medical School, 2Broad Institute of Harvard and Massachusetts Institute of Technology, 3Division of Health Sciences and Technology,Massachusetts Institute of Technology, 4Program for Evolutionary Dynamics, Department of Organismic and Evolutionary Biology, Department of Mathematics,Harvard University , 5Department of Applied Mathematics,Harvard University , 6Department of Physics,Massachusetts Institute of Technology, 7Department of Systems Biology,Harvard Medical School, 8Department of Biology,Massachusetts Institute of Technology

简介：The Hi-C method allows unbiased, genome-wide identification of chromatin interactions (1). Hi-C couples proximity ligation and massively parallel sequencing. The resulting data can be used to study genomic architecture at multiple scales: initial results identified features such as chromosome territories, segregation of open and closed chromatin, and chromatin structure at the megabase scale.

全文：

Overview

The Hi-C method enables unbiased, genome-wide identification of chromatin interactions, providing insights into genomic architecture. This technique combines proximity ligation with massively parallel sequencing to reveal features such as chromosome territories and chromatin structure at the megabase scale.

Key Study Components

Area of Science

• Genomics
• Chromatin Biology
• High-Throughput Sequencing

Background

• Hi-C is a method for studying long-range chromatin interactions.
• It involves cross-linking, lysis, and fragmentation of DNA.
• The technique allows for the analysis of chromatin folding and organization.
• Initial studies have identified key features of chromatin architecture.

Purpose of Study

• To explore the architecture of the human genome.
• To provide a detailed protocol for performing Hi-C experiments.
• To simulate genome dynamics based on Hi-C results.

Methods Used

• Cross-linking of cells with formaldehyde.
• Fragmentation of DNA using restriction enzymes.
• Incorporation of biotinylated residues and ligation of cross-linked fragments.
• High-throughput sequencing of purified junctions.

Main Results

• Identification of chromosome territories and compartmentalization of chromatin.
• Evidence for fractal organization of the genome.
• Insights into the dynamics of chromatin folding.
• Creation of a comprehensive catalog of chromatin interactions.

Conclusions

• Hi-C is a powerful tool for understanding genomic architecture.
• The method provides valuable insights into chromatin interactions.
• Future applications may enhance our understanding of gene regulation.

Frequently Asked Questions